I've been scratching my head over this since Friday.

So I went for a ride with a new ecu for about a half hour drove like a dream. Park it, then the next day I go to leave and make it about a half mile from my house and she(this one's a lady) shuts down on me. I have her towed, scan for dtc's and get jl207, replaced it. Still no start, realized I forgot to do the TBA so I try to do that and I just get error. Even with this car powered from a running car.

 I've got loud clicking from my injectors when the key is "on", a slight whine for a few seconds from the TB, and I can't connect to the ECU while this is happening. To connect with VCDS I've got to pull to ecu relay, click connect, then replace the relay.

This is what I'm looking at:

Address 01: Engine
   Protocol: KW1281
   Controller: 4D0 907 559 E
   Coding: 07712
   Shop #: WSC 87119

Address 03: ABS Brakes
   Protocol: KW1281
   Controller: 8D0 907 389 E
   Component: ABS/ESP allrad      D56
   Coding: 06397
   Shop #: WSC 40126

Address 06: Seat Mem. Pass
   Protocol: KW1281
   Controller: 4B0 959 760 C
   Component: Sitzmemory R1 BF    0102
   Coding: 00003
   Shop #: WSC 00000

Address 08: Auto HVAC
   Protocol: KW1281
   Controller: 4B0 820 043 AH
   Component: A6-Klimavoll
   Note: Excessive Comm Errors

Address 15: Airbags
   Protocol: KW1281
   Controller: 4B0 959 655 F
   Component: Airbag Front+Kopf  2002
   Coding: 00305
   Shop #: WSC 02325

Address 16: Steering wheel
   Protocol: KW1281
   Controller: 4B0 907 487 D
   Component: Lenkradelektronik    D03
   Coding: 00102
   Shop #: WSC 65535

Address 17: Instruments
   Protocol: KW1281
   Controller: 4B0 920 981 G
   Component: C5-KOMBIINSTR. VDO D12
   Coding: 03283
   Shop #: WSC 00000

Address 25: Immobilizer
   Protocol: KW1281
   Controller: Bit teA dre ss
   Component: e 17 eingeben         

Address 33: OBD-II
   Protocol: ?
   Controller: OBD-II/EOBD, Protocol Keyword: $0808

Address 35: Centr. Locks
   Protocol: KW1281
   Controller: 4B0 962 258 J
   Component: Central Lock/Alarm  D34
   Coding: 15885
   Shop #: WSC 02325

Address 36: Seat Mem. Drvr
   Protocol: KW1281
   Controller: 4B0 959 760 B
   Component: Sitzmemory R1 F     0101
   Coding: 00001
   Shop #: WSC 00000

Address 45: Inter. Monitor
   Protocol: KW1281
   Controller: 4B0 951 178 A
   Component: Innenraumueberw.    D04
   Coding: 00101
   Shop #: WSC 02325

Address 55: Xenon Range
   Protocol: KW1281
   Controller: 4B0 907 357 C
   Component: dynamische LWR       D06
   Coding: 00020
   Shop #: WSC 02325

Address 56: Radio
   Protocol: KW1281
   Controller: 4B0 035 195 A
   Component:  Radio              D00
   Coding: 00116
   Shop #: WSC 02325

Address 7E: Ctrl Head Dash
   Protocol: KWP2000
   Controller:
   Note: Excessive Comm Errors

-----------------------------------------------------------------------------------

VCDS-Lite Version: Release 1.2
Monday, 19 August 2013, 20:17:14:14057


Chassis Type: 4B - Audi A6 C5
Scan: 01,02,03,06,08,15,16,17,18,22,34,35,36,37,45,55,56,57,65,67,75,76,77
 
-------------------------------------------------------------------------------
Address 01: Engine       Labels: None
   Controller: 4D0 907 559 E
   Component: 4.2L V8/5V      G   0002
   Coding: 07712
   Shop #: WSC 87119
   VCID: 3013A52AE33B
   WAUZL64B91N038034     AUZ7Z0Y1530632
1 Fault Found:
17987 -  Throttle Actuator (J338): Adaptation Not Started
            P1579 - 35-00 -   -
Readiness: 0110 1100

-------------------------------------------------------------------------------
Address 03: ABS Brakes       Labels: 8D0-907-389.LBL
   Controller: 8D0 907 389 E
   Component: ABS/ESP allrad      D56
   Coding: 06397
   Shop #: WSC 40126
   VCID: 351D943E1C59
6 Faults Found:
18034 -  Powertrain Data Bus: Missing Message from TCU
            P1626 - 35-00 -   -
01422 -  Hydraulic Pump for Electronic Stability Program (V156)
            35-00 -   -
01044 -  Control Module Incorrectly Coded
            35-00 -   -
18258 -  Powertrain Data Bus: Missing Message from ECU
            P1850 - 35-00 -   -
18265 -  Load Signal: Error Message from ECU
            P1857 - 35-10 -   - - Intermittent
00526 -  Brake Light Switch-F
            36-10 -  Open Circuit - Intermittent

-------------------------------------------------------------------------------
Address 06: Seat Mem. Pass       Labels: None
   Controller: 4B0 959 760 C
   Component: Sitzmemory R1 BF    0102
   Coding: 00003
   Shop #: WSC 00000
   VCID: 2D2DBC5EF409
2 Faults Found:
00668 -  Supply Voltage Terminal 30
            07-10 -  Signal too Low - Intermittent
00668 -  Supply Voltage Terminal 30
            06-10 -  Signal too High - Intermittent

-------------------------------------------------------------------------------
Address 08: Auto HVAC       Labels: 4B0-820-043-MY1.LBL
   Controller: 4B0 820 043 AH
   Component: A6-Klimavoll
   Coding: 00180
   Shop #: WSC 02325
   VCID: 60B3156AF35B
   Note: Excessive Comm Errors

-------------------------------------------------------------------------------
Address 15: Airbags       Labels: 4B0-959-655-AI7.LBL
   Controller: 4B0 959 655 F
   Component: Airbag Front+Kopf  2002
   Coding: 00305
   Shop #: WSC 02325
   VCID: 3319AA26122D
No fault code found.

-------------------------------------------------------------------------------
Address 16: Steering wheel       Labels: 4B0-907-487.LBL
   Controller: 4B0 907 487 D
   Component: Lenkradelektronik    D03
   Coding: 00102
   Shop #: WSC 65535
   VCID: 2D2DBC5EF409
No fault code found.

-------------------------------------------------------------------------------
Address 17: Instruments       Labels: 4B0-920-xxx-17.LBL
   Controller: 4B0 920 981 G
   Component: C5-KOMBIINSTR. VDO D12
   Coding: 03283
   Shop #: WSC 00000
   VCID: 2A27B742C5E7
   WAUZL64B71N147947     AUZ7Z0A1830364
8 Faults Found:
00779 -  Outside Air Temp Sensor (G17)
            30-10 -  Open or Short to Plus - Intermittent
01177 -  Engine Control Unit
            49-00 -  No Communications
01314 -  Engine Control Module
            49-10 -  No Communications - Intermittent
01315 -  Transmission Control Module
            49-00 -  No Communications
00668 -  Supply Voltage Terminal 30
            53-10 -  Supply Voltage Too Low - Intermittent
00562 -  Sensor for Oil Level/Temperature (G266)
            30-10 -  Open or Short to Plus - Intermittent
00562 -  Sensor for Oil Level/Temperature (G266)
            29-10 -  Short to Ground - Intermittent
00562 -  Sensor for Oil Level/Temperature (G266)
            27-10 -  Implausible Signal - Intermittent

-------------------------------------------------------------------------------
Address 35: Centr. Locks       Labels: 4B0-962-258.LBL
   Controller: 4B0 962 258 J
   Component: Central Lock/Alarm  D34
   Coding: 15885
   Shop #: WSC 02325
   VCID: 3013A52AE33B
12 Faults Found:
01366 -  Opened Due to Crash Signal
            35-00 -   -
01371 -  Alarm triggered by Door Contact Switch; Driver's Side
            35-00 -   -
01572 -  Alarm triggered by Door Contact Switch; Passenger Side
            35-00 -   -
01374 -  Alarm triggered by Terminal 15
            35-00 -   -
01370 -  Alarm triggered by Interior Monitoring
            35-00 -   -
01368 -  Alarm triggered by Luggage Compartment Switch
            35-00 -   -
00955 -  Key 1
            09-10 -  Adaptation Limit Surpassed - Intermittent
00956 -  Key 2
            09-10 -  Adaptation Limit Surpassed - Intermittent
01574 -  Alarm triggered by Door Contact Switch; Right Rear
            35-00 -   -
01573 -  Alarm triggered by Door Contact Switch; Left Rear
            35-00 -   -
01586 -  Locking Cylinder Contact Switch; Passenger Side (F242); Close
            29-00 -  Short to Ground
01585 -  Locking Cylinder Contact Switch; Passenger Side (F242); Open
            29-00 -  Short to Ground

-------------------------------------------------------------------------------
Address 36: Seat Mem. Drvr       Labels: None
   Controller: 4B0 959 760 B
   Component: Sitzmemory R1 F     0101
   Coding: 00001
   Shop #: WSC 00000
   VCID: 2C2BB15ACF13
No fault code found.

-------------------------------------------------------------------------------
Address 45: Inter. Monitor       Labels: None
   Controller: 4B0 951 178 A
   Component: Innenraumueberw.    D04
   Coding: 00101
   Shop #: WSC 02325
   VCID: 263F4372D1FF
No fault code found.

-------------------------------------------------------------------------------
Address 55: Xenon Range       Labels: 4B0-907-357-AUT.LBL
   Controller: 4B0 907 357 C
   Component: dynamische LWR       D06
   Coding: 00020
   Shop #: WSC 02325
   VCID: 28234D4ADBEB
3 Faults Found:
01535 -  Control Circuit for Right Headlight Range Adjusting Motor (V49)
            30-00 -  Open or Short to Plus
01534 -  Control Circuit for Left Headlight Range Adjusting Motor (V48)
            30-00 -  Open or Short to Plus
01533 -  Terminal 56 (High Beams)
            36-10 -  Open Circuit - Intermittent

-------------------------------------------------------------------------------
Address 56: Radio       Labels: 8D0-035-1xx-56.LBL
   Controller: 4B0 035 195 A
   Component:  Radio              D00
   Coding: 00116
   Shop #: WSC 02325
   VCID: 1E4F6B9289AF
No fault code found.

End   --------------------------------------------------------------------------------------------------

Fixed, yeah I'm getting around to the rest. I don't really have the time to just bang it out, so an hour here, an hour there. It'll get done.
 I ended up cleaning and tightening some grounds. Just about all of them..
 A few were a little over finger tight. The ones on the firewall under the coolant res. were almost off, that's the last time I pay somebody in beer I'll tell you what. What's with the ugly brown grounds anyway? Are those really factory?

I removed and cleaned the TB, replaced the gas pedal as it was original to the car. Although I think polishing the brackets that hold the engine cover is what did it... Haha, Thank you for your time man, it is greatly appreciated. This thing was smashed, then submerged, and I think smashed again before I got it on the cheap. Tossed a few grand at her and she's a beast yet again!